Locus 10831

Sequence ID	dm3.chr3R
Location	16,786,819 – 16,786,921
Length	102
Max. P	0.752240

overview

Window 0

Location	16,786,819 – 16,786,921
Length	102
Sequences	7
Columns	114
Reading direction	forward
Mean pairwise identity	79.18
Shannon entropy	0.36689
G+C content	0.42166
Mean single sequence MFE	-22.88
Consensus MFE	-10.69
Energy contribution	-10.66
Covariance contribution	-0.04
Combinations/Pair	1.19
Mean z-score	-2.13
Structure conservation index	0.47
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.14
SVM RNA-class probability	0.561442
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16786819 102 + 27905053
CAUGUGAACGCGACAGGUUUGCGUUCUCGCUUUCCCCUCGCCCUCU-------GCAUUCAUUAGUGUAUACA-----UACUUUCGUCUCGAGACAUACGUAUUUUUAAUUAAUU
.(((((...((((..((...(((....)))...))..))))....(-------((((......)))))))))-----)......(((....))).................... ( -20.10, z-score =  -1.40, R)
>droPer1.super_0 7809830 112 + 11822988
CAUGUGAGCGCGACAGGUUUGCGUUCUCCCUCCCUCUGUGUUUGCACAGAGAGA--UACACACAUGUGCCCCGCACAUACAUAUAUGUAGAUACAUUUGUAUUUUUAAUUAAUU
(((((((((((((.....))))))))....((.(((((((....))))))).))--.......((((((...))))))....))))).((((((....)))))).......... ( -31.50, z-score =  -3.23, R)
>dp4.chr2 18143830 110 - 30794189
CAUGUGAGCGCGACAGGUUUGCGUUCUCCCUCCCUCUGUGUUUGCCCAGAGAGAGAUACACACAUGUGCCCCG----UUCAUAUAUGUAGAUACAUUUGUAUUUUUAAUUAAUU
.(((((((((.(.((.((.((.((.....(((.(((((.(....).))))).)))..)).)).)).)).).))----))))))).((.((((((....)))))).))....... ( -27.90, z-score =  -2.69, R)
>droEre2.scaffold_4770 12876574 101 - 17746568
CAUGUGAACGCGACAGGUUUGCGUUCUCACUUUCCCCUCGCCCUC--------GCAUUCAUUAGUGUAUACA-----UACUUUCCUCUCGAGACAUACGUAUUUUUAAUUAAUU
.((((((((((((.....))))))))................(((--------(........(((((....)-----)))).......)))))))).................. ( -17.96, z-score =  -1.62, R)
>droYak2.chr3R 5577796 101 + 28832112
CAUGUGAACGCGACAGGUUUGCGUUCUCGCUUUCCCCUCGCCCUC--------GCAUUCAUUAGUGUAUACA-----UACUUUCCUCUCGAGACAUACGUAUUUUUAAUUAAUU
.((((((..((((..((...(((....)))...))..))))..))--------))))..((((((..((((.-----((.((((.....))))..)).)))).....)))))). ( -20.90, z-score =  -2.24, R)
>droSec1.super_38 61685 101 - 400794
CAUGUGAACGCGACAGGUUUACGUUCUCGCUUUCCCCUCGCCCUC--------GCAUUCAUUAGUGUAUACA-----UACUUUCGUCUCGAGACAUACGUAUUUUUAAUUAAUU
.((((((..((((..((....((....))....))..))))..))--------))))..((((((......(-----(((....(((....)))....)))).....)))))). ( -18.70, z-score =  -1.28, R)
>droSim1.chr3R 22847006 101 - 27517382
CAUGUGAACGCGACAGGUUUGCGUUCUCGCUUUCCCCUCGCCCUC--------GCAUUCAUUAGUGUAUACA-----UACUUUCGUCUCGAGACAUACGUAUUUUUAAUUAAUU
.((((((..((((..((...(((....)))...))..))))..))--------))))..((((((......(-----(((....(((....)))....)))).....)))))). ( -23.10, z-score =  -2.46, R)
>consensus
CAUGUGAACGCGACAGGUUUGCGUUCUCGCUUUCCCCUCGCCCUC________GCAUUCAUUAGUGUAUACA_____UACUUUCGUCUCGAGACAUACGUAUUUUUAAUUAAUU
.((((((((((((.....))))))))...........................((((......)))).........................)))).................. (-10.69 = -10.66 +  -0.04)

alignment

secondary structure

dotplot

Window 1

Location	16,786,819 – 16,786,921
Length	102
Sequences	7
Columns	114
Reading direction	reverse
Mean pairwise identity	79.18
Shannon entropy	0.36689
G+C content	0.42166
Mean single sequence MFE	-29.54
Consensus MFE	-9.95
Energy contribution	-11.81
Covariance contribution	1.86
Combinations/Pair	1.22
Mean z-score	-2.96
Structure conservation index	0.34
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.59
SVM RNA-class probability	0.752240
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16786819 102 - 27905053
AAUUAAUUAAAAAUACGUAUGUCUCGAGACGAAAGUA-----UGUAUACACUAAUGAAUGC-------AGAGGGCGAGGGGAAAGCGAGAACGCAAACCUGUCGCGUUCACAUG
............((((...((((....))))...)))-----)((((.((....)).))))-------.(((.((((.(((...(((....)))...))).)))).)))..... ( -26.60, z-score =  -2.32, R)
>droPer1.super_0 7809830 112 - 11822988
AAUUAAUUAAAAAUACAAAUGUAUCUACAUAUAUGUAUGUGCGGGGCACAUGUGUGUA--UCUCUCUGUGCAAACACAGAGGGAGGGAGAACGCAAACCUGUCGCGCUCACAUG
............(((((.((((......)))).)))))(.(((.((((..(((((...--((((((((((....))))))))))......)))))....)))).))).)..... ( -34.70, z-score =  -3.14, R)
>dp4.chr2 18143830 110 + 30794189
AAUUAAUUAAAAAUACAAAUGUAUCUACAUAUAUGAA----CGGGGCACAUGUGUGUAUCUCUCUCUGGGCAAACACAGAGGGAGGGAGAACGCAAACCUGUCGCGCUCACAUG
..................((((....))))...(((.----((.((((....(((((.((((((((((........))))))))))....)))))....)))).)).))).... ( -31.80, z-score =  -3.44, R)
>droEre2.scaffold_4770 12876574 101 + 17746568
AAUUAAUUAAAAAUACGUAUGUCUCGAGAGGAAAGUA-----UGUAUACACUAAUGAAUGC--------GAGGGCGAGGGGAAAGUGAGAACGCAAACCUGUCGCGUUCACAUG
............((((((((.(..(....)..).)))-----)))))..........(((.--------(((.((((.(((...(((....)))...))).)))).))).))). ( -28.10, z-score =  -3.06, R)
>droYak2.chr3R 5577796 101 - 28832112
AAUUAAUUAAAAAUACGUAUGUCUCGAGAGGAAAGUA-----UGUAUACACUAAUGAAUGC--------GAGGGCGAGGGGAAAGCGAGAACGCAAACCUGUCGCGUUCACAUG
............((((((((.(..(....)..).)))-----)))))..........(((.--------(((.((((.(((...(((....)))...))).)))).))).))). ( -30.00, z-score =  -3.50, R)
>droSec1.super_38 61685 101 + 400794
AAUUAAUUAAAAAUACGUAUGUCUCGAGACGAAAGUA-----UGUAUACACUAAUGAAUGC--------GAGGGCGAGGGGAAAGCGAGAACGUAAACCUGUCGCGUUCACAUG
............(((((((((((....)))....)))-----)))))..........(((.--------(((.((((.(((...(((....)))...))).)))).))).))). ( -27.00, z-score =  -2.39, R)
>droSim1.chr3R 22847006 101 + 27517382
AAUUAAUUAAAAAUACGUAUGUCUCGAGACGAAAGUA-----UGUAUACACUAAUGAAUGC--------GAGGGCGAGGGGAAAGCGAGAACGCAAACCUGUCGCGUUCACAUG
............(((((((((((....)))....)))-----)))))..........(((.--------(((.((((.(((...(((....)))...))).)))).))).))). ( -28.60, z-score =  -2.84, R)
>consensus
AAUUAAUUAAAAAUACGUAUGUCUCGAGACGAAAGUA_____UGUAUACACUAAUGAAUGC________GAGGGCGAGGGGAAAGCGAGAACGCAAACCUGUCGCGUUCACAUG
..................((((.....................((((.((....)).))))........(((.((((.(((...(((....)))...))).)))).))))))). ( -9.95 = -11.81 +   1.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:31:15 2011